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    PIK3C3 phosphatidylinositol 3-kinase catalytic subunit type 3 [ Homo sapiens (human) ]

    Gene ID: 5289, updated on 4-Jan-2025

    Summary

    Official Symbol
    PIK3C3provided by HGNC
    Official Full Name
    phosphatidylinositol 3-kinase catalytic subunit type 3provided by HGNC
    Primary source
    HGNC:HGNC:8974
    See related
    Ensembl:ENSG00000078142 MIM:602609; AllianceGenome:HGNC:8974
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    VPS34; Vps34; hVps34
    Summary
    Enables 1-phosphatidylinositol-3-kinase activity. Involved in several processes, including early endosome to late endosome transport; macroautophagy; and phosphatidylinositol-3-phosphate biosynthetic process. Acts upstream of or within autophagy and positive regulation of protein lipidation. Located in autolysosome; late endosome; and midbody. Part of phosphatidylinositol 3-kinase complex, class III. [provided by Alliance of Genome Resources, Jan 2025]
    Expression
    Ubiquitous expression in testis (RPKM 7.2), brain (RPKM 7.0) and 25 other tissues See more
    Orthologs
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    Genomic context

    See PIK3C3 in Genome Data Viewer
    Location:
    18q12.3
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 18 NC_000018.10 (41955234..42087830)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 18 NC_060942.1 (42146975..42279510)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (39535199..39667794)

    Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene chromosome 15 open reading frame 40 pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:39445727-39446283 Neighboring gene uncharacterized LOC105372085 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13247 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13248 Neighboring gene uncharacterized LOC124904350 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13249 Neighboring gene long intergenic non-protein coding RNA 907 Neighboring gene RNA, 5S ribosomal pseudogene 454

    Genomic regions, transcripts, and products

    Expression

    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    BioGRID CRISPR Screen Phenotypes (610 hits/1314 screens)

    EBI GWAS Catalog

    Description
    Genome-wide association study identifies loci affecting blood copper, selenium and zinc.
    EBI GWAS Catalog
    Genome-wide association study of chronic periodontitis in a general German population.
    EBI GWAS Catalog
    Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
    EBI GWAS Catalog

    HIV-1 interactions

    Protein interactions

    Items 1 - 20 of 23
    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env CCR5 activation by gp120 triggers the assembly of endogenous Lyn, PI3K, and Pyk2 and is associated with PI3K and Pyk2 translocation from the cytoplasm to the membrane where they colocalized with Lyn PubMed
    env Concomitant activation of Lyn, Pyk2, and class IA PI3K are required for gp120-induced IL-1beta production PubMed
    env Insulin-like growth factor-I (IGF-I) and erythropoietin treatment protect against HIV/gp120-mediated neuronal damage in culture and in vivo, in part, through cooperative activation of phosphatidylinositol 3-kinase/Akt/GSK-3beta signaling PubMed
    env HIV-1 gp120-induced TNF-alpha production by primary human macrophages is mediated by phosphatidylinositol-3 (PI-3) kinase and mitogen-activated protein (MAP) kinase pathways PubMed
    env CD45 modulates HIV-1 gp120-induced apoptosis by regulating Fas ligand induction and activation of the phosphoinositide 3-kinase/Akt pathway PubMed
    env Pre-treatment of endothelial cells with fibroblast growth factor 2 (FGF2) protects cells from HIV-1 gp120 angiotoxicity; this protection is regulated by crosstalk among the ERK, PI3K-AKT and PKC signaling pathways PubMed
    env HIV-1 gp120-induced PI3-kinase activity and calcium mobilization are inhibited by pertussis toxin and blocking antibodies directed against CCR5 and CXCR4, suggesting that this signaling is mediated through these chemokine receptors PubMed
    Envelope surface glycoprotein gp160, precursor env HIV-1 gp160 disrupts the association between phospholipase C gamma-1 and phosphoinositide 3 kinase (PI3-kinase), and this effect is dependent on PI3-kinase activity PubMed
    env PI3-kinase activation induced by HIV-1 gp160 leads to downregulation of LFA-1-mediated T cell adhesion to B cells PubMed
    Nef nef Downregulation of cell surface major histocompatibility complex class I (MHC-I) protein expression by HIV-1 Nef depends on a phosphoinositide 3-kinase (PI3K)-regulated signaling pathway, suggesting an interaction between Nef and PI3K PubMed
    nef In the context of Nef-associated kinase complex (NAKC), hnRNP-K interacts with HIV-1 Nef and recruits LCK, PKCdelta, and PI-3 kinase PubMed
    nef The presence of HIV-1 Nef in Jurkat cells stimulated with a combination of PMA and anti-CD28 upregulates the levels of PI3K production PubMed
    nef The association of phosphatidylinositol (PI) 3-kinase with platelet-derived growth factor (PDGF) activated receptor was downregulated by HIV-1 nef expression PubMed
    Tat tat HIV-1 Tat induces phosphorylation of PI3K, AKT, PTEN, and GSK-3beta activating PI3K and AKT and inactivating PTEN and GSK-3beta in vIL-6 expressing cells PubMed
    tat HIV-1 Tat-induced upregulation of IDO production requires the activity of IFN-gamma signaling pathway such as JAK and PI3K in human monocyte derived-dendritic cells PubMed
    tat Phosphatidylinositol 3-kinase/Akt signaling pathway is involved in HIV-1 Tat-induced NADPH oxidase stimulation and LTR transactivation PubMed
    tat HIV-1 Tat in combination with KSHV kaposin A activates the MEK/ERK, STAT3, and PI3K/Akt signals in NIH3T3 cells PubMed
    tat HIV-1 Tat-mediated cytopathic changes in human brain micro vascular endothelial cells involves its interaction with phosphatidylinositol 3-kinase (PI3K) PubMed
    tat Pro-survival effects of intracellular HIV-1 Tat in a microglial cell line is attributed to activation of the PI-3-kinase (PI3K)/Akt pathway via decreasing expression of PTEN, a negative regulator of the PI-3-K pathway PubMed
    tat HIV-1 Tat activates phosphatidylinositol 3-kinase (PI3K), leading to the activation of Akt/PKB, decreased levels of cAMP and CREB phosphorylation, and the protection of cells from apoptosis PubMed
    tat Phosphatidylinositol 3-kinase inhibits HIV-1 Tat-mediated transactivation of the HIV-1 LTR promoter by affecting the formation of the Tat-associated kinase transactivating complex PubMed
    tat HIV-1 Tat induced release of MCP-1 from human lung microvascular endothelial cells involves an interaction between Tat and PI3 kinase PubMed
    tat Activation of protein kinase C-epsilon by HIV-1 Tat involves an interaction with PI 3-kinase PubMed
    Items 1 - 20 of 23

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    General gene information

    Clone Names

    • MGC61518

    Gene Ontology Provided by GOA

    Process Evidence Code Pubs
    involved_in autophagosome assembly  
    involved_in autophagosome assembly PubMed 
    involved_in autophagosome maturation PubMed 
    acts_upstream_of_or_within autophagy PubMed 
    involved_in cell division  
    involved_in cellular response to glucose starvation  
    involved_in early endosome to late endosome transport PubMed 
    involved_in early endosome to late endosome transport PubMed 
    involved_in endocytosis  
    involved_in macroautophagy  
    involved_in macroautophagy  
    involved_in pexophagy  
    involved_in phosphatidylinositol phosphate biosynthetic process PubMed 
    involved_in phosphatidylinositol-3-phosphate biosynthetic process  
    involved_in phosphatidylinositol-3-phosphate biosynthetic process PubMed 
    involved_in phosphatidylinositol-mediated signaling  
    involved_in positive regulation by host of viral genome replication PubMed 
    acts_upstream_of_or_within positive regulation of protein lipidation PubMed 
    involved_in protein localization to phagophore assembly site  
    involved_in protein targeting to lysosome PubMed 
    involved_in regulation of autophagy PubMed 
    involved_in regulation of cytokinesis PubMed 
    involved_in regulation of macroautophagy PubMed 
    involved_in synaptic vesicle endocytosis  
    Items 1 - 20 of 21
    Component Evidence Code Pubs
    located_in GABA-ergic synapse  
    located_in autolysosome PubMed 
    located_in autophagosome  
    located_in axoneme  
    is_active_in cytoplasm  
    located_in cytosol  
    is_active_in endosome  
    located_in glutamatergic synapse  
    located_in late endosome PubMed 
    located_in membrane PubMed 
    is_active_in membrane  
    located_in midbody PubMed 
    is_active_in peroxisome  
    located_in phagocytic vesicle membrane  
    is_active_in phagophore assembly site  
    part_of phosphatidylinositol 3-kinase complex, class III PubMed 
    part_of phosphatidylinositol 3-kinase complex, class III  
    part_of phosphatidylinositol 3-kinase complex, class III, type I  
    part_of phosphatidylinositol 3-kinase complex, class III, type II  
    located_in postsynaptic endosome  
    located_in presynaptic endosome  
    Items 1 - 20 of 21

    General protein information

    Preferred Names
    phosphatidylinositol 3-kinase catalytic subunit type 3
    Names
    PI3-kinase type 3
    PI3K type 3
    PtdIns-3-kinase type 3
    phosphatidylinositol 3-kinase p100 subunit
    phosphoinositide-3-kinase, class 3
    vacuolar protein sorting 34 homolog
    NP_001294949.1
    NP_002638.2
    XP_047293505.1
    XP_047293506.1
    XP_047293507.1
    XP_054174667.1
    XP_054174668.1
    XP_054174669.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001308020.2 → NP_001294949.1  phosphatidylinositol 3-kinase catalytic subunit type 3 isoform 2

      See identical proteins and their annotated locations for NP_001294949.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC087683, AK298517, CA945171, DB450556
      Consensus CDS
      CCDS77180.1
      UniProtKB/TrEMBL
      A8MYT4, B4DPV9
      Related
      ENSP00000381845.2, ENST00000398870.7
      Conserved Domains (3) summary
      cd08397
      Location:24 → 123
      C2_PI3K_class_III; C2 domain present in class III phosphatidylinositol 3-kinases (PI3Ks)
      cd00870
      Location:220 → 440
      PI3Ka_III; Phosphoinositide 3-kinase (PI3K) class III, accessory domain (PIK domain); PIK domain is conserved in all PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation. In general, PI3Ks class III ...
      cd00896
      Location:476 → 820
      PI3Kc_III; Catalytic domain of Class III Phosphoinositide 3-kinase
    2. NM_002647.4 → NP_002638.2  phosphatidylinositol 3-kinase catalytic subunit type 3 isoform 1

      See identical proteins and their annotated locations for NP_002638.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC087683, BC053651, CA945171, DB450556
      Consensus CDS
      CCDS11920.1
      UniProtKB/Swiss-Prot
      Q15134, Q8NEB9
      UniProtKB/TrEMBL
      B4DPV9
      Related
      ENSP00000262039.3, ENST00000262039.9
      Conserved Domains (3) summary
      cd08397
      Location:26 → 186
      C2_PI3K_class_III; C2 domain present in class III phosphatidylinositol 3-kinases (PI3Ks)
      cd00870
      Location:283 → 503
      PI3Ka_III; Phosphoinositide 3-kinase (PI3K) class III, accessory domain (PIK domain); PIK domain is conserved in all PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation. In general, PI3Ks class III ...
      cd00896
      Location:539 → 883
      PI3Kc_III; Catalytic domain of Class III Phosphoinositide 3-kinase

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000018.10 Reference GRCh38.p14 Primary Assembly

      Range
      41955234..42087830
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047437549.1 → XP_047293505.1  phosphatidylinositol 3-kinase catalytic subunit type 3 isoform X1

      UniProtKB/TrEMBL
      B4DPV9
    2. XM_047437551.1 → XP_047293507.1  phosphatidylinositol 3-kinase catalytic subunit type 3 isoform X3

    3. XM_047437550.1 → XP_047293506.1  phosphatidylinositol 3-kinase catalytic subunit type 3 isoform X2

      UniProtKB/TrEMBL
      B4DPV9

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060942.1 Alternate T2T-CHM13v2.0

      Range
      42146975..42279510
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054318692.1 → XP_054174667.1  phosphatidylinositol 3-kinase catalytic subunit type 3 isoform X1

      UniProtKB/TrEMBL
      B4DPV9
    2. XM_054318694.1 → XP_054174669.1  phosphatidylinositol 3-kinase catalytic subunit type 3 isoform X3

    3. XM_054318693.1 → XP_054174668.1  phosphatidylinositol 3-kinase catalytic subunit type 3 isoform X2

      UniProtKB/TrEMBL
      B4DPV9
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